plot.transformed.phylo: Plot a transformed phylogenetic tree

In mmodely: Modeling Multivariate Origins Determinants - Evolutionary Lineages in Ecology

Plot a transformed phylogenetic tree

Description

PGLS regression will use maximum likelihood to estimate tree parameters while also estimating regression parameters. Here we provide a utility function to visualize what this new tree would look like in two dimensions.

Usage

## S3 method for class 'transformed.phylo'
plot(x, delta=1,kappa=1,...)

Arguments

x	a phylogenetic tree
delta	an integer between 0 and 3
kappa	an integer between 0 and 3
...	other parameters passed to 'plot'

Value

a plot of a transformed phylogenetic tree

Examples

tree.path <- system.file("extdata","primate-springer.2012.tre", package="mmodely")
phyl <- ape::read.tree(tree.path)[[5]]

plot.transformed.phylo(x=phyl, delta=2.3,kappa=2.1)

mmodely documentation built on May 31, 2023, 6:47 p.m.